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<a href="electro__physiology_8h.html">Go to the documentation of this file.</a><div class="fragment"><div class="line"><a name="l00001"></a><span class="lineno">    1</span>&#160;<span class="comment">/* -------------------------------------------------------------------------*</span></div><div class="line"><a name="l00002"></a><span class="lineno">    2</span>&#160;<span class="comment"> *                              SPHinXsys                                   *</span></div><div class="line"><a name="l00003"></a><span class="lineno">    3</span>&#160;<span class="comment"> * --------------------------------------------------------------------------*</span></div><div class="line"><a name="l00004"></a><span class="lineno">    4</span>&#160;<span class="comment"> * SPHinXsys (pronunciation: s&#39;finksis) is an acronym from Smoothed Particle    *</span></div><div class="line"><a name="l00005"></a><span class="lineno">    5</span>&#160;<span class="comment"> * Hydrodynamics for industrial compleX systems. It provides C++ APIs for   *</span></div><div class="line"><a name="l00006"></a><span class="lineno">    6</span>&#160;<span class="comment"> * physical accurate simulation and aims to model coupled industrial dynamic *</span></div><div class="line"><a name="l00007"></a><span class="lineno">    7</span>&#160;<span class="comment"> * systems including fluid, solid, multi-body dynamics and beyond with SPH  *</span></div><div class="line"><a name="l00008"></a><span class="lineno">    8</span>&#160;<span class="comment"> * (smoothed particle hydrodynamics), a meshless computational method using *</span></div><div class="line"><a name="l00009"></a><span class="lineno">    9</span>&#160;<span class="comment"> * particle discretization.                                                 *</span></div><div class="line"><a name="l00010"></a><span class="lineno">   10</span>&#160;<span class="comment"> *                                                                          *</span></div><div class="line"><a name="l00011"></a><span class="lineno">   11</span>&#160;<span class="comment"> * SPHinXsys is partially funded by German Research Foundation              *</span></div><div class="line"><a name="l00012"></a><span class="lineno">   12</span>&#160;<span class="comment"> * (Deutsche Forschungsgemeinschaft) DFG HU1527/6-1, HU1527/10-1                *</span></div><div class="line"><a name="l00013"></a><span class="lineno">   13</span>&#160;<span class="comment"> * and HU1527/12-1.                                                         *</span></div><div class="line"><a name="l00014"></a><span class="lineno">   14</span>&#160;<span class="comment"> *                                                                           *</span></div><div class="line"><a name="l00015"></a><span class="lineno">   15</span>&#160;<span class="comment"> * Portions copyright (c) 2017-2020 Technical University of Munich and      *</span></div><div class="line"><a name="l00016"></a><span class="lineno">   16</span>&#160;<span class="comment"> * the authors&#39; affiliations.                                               *</span></div><div class="line"><a name="l00017"></a><span class="lineno">   17</span>&#160;<span class="comment"> *                                                                           *</span></div><div class="line"><a name="l00018"></a><span class="lineno">   18</span>&#160;<span class="comment"> * Licensed under the Apache License, Version 2.0 (the &quot;License&quot;); you may   *</span></div><div class="line"><a name="l00019"></a><span class="lineno">   19</span>&#160;<span class="comment"> * not use this file except in compliance with the License. You may obtain a *</span></div><div class="line"><a name="l00020"></a><span class="lineno">   20</span>&#160;<span class="comment"> * copy of the License at http://www.apache.org/licenses/LICENSE-2.0.        *</span></div><div class="line"><a name="l00021"></a><span class="lineno">   21</span>&#160;<span class="comment"> *                                                                           *</span></div><div class="line"><a name="l00022"></a><span class="lineno">   22</span>&#160;<span class="comment"> * --------------------------------------------------------------------------*/</span></div><div class="line"><a name="l00030"></a><span class="lineno">   30</span>&#160;<span class="preprocessor">#ifndef ELECTRO_PHYSIOLOGY_H</span></div><div class="line"><a name="l00031"></a><span class="lineno">   31</span>&#160;<span class="preprocessor">#define ELECTRO_PHYSIOLOGY_H</span></div><div class="line"><a name="l00032"></a><span class="lineno">   32</span>&#160;</div><div class="line"><a name="l00033"></a><span class="lineno">   33</span>&#160;<span class="preprocessor">#include &quot;<a class="code" href="particle__dynamics__diffusion__reaction_8h.html">particle_dynamics_diffusion_reaction.h</a>&quot;</span></div><div class="line"><a name="l00034"></a><span class="lineno">   34</span>&#160;<span class="preprocessor">#include &quot;<a class="code" href="solid__particles_8h.html">solid_particles.h</a>&quot;</span></div><div class="line"><a name="l00035"></a><span class="lineno">   35</span>&#160;</div><div class="line"><a name="l00036"></a><span class="lineno">   36</span>&#160;<span class="keyword">namespace </span><a class="code" href="namespace_s_p_h.html">SPH</a></div><div class="line"><a name="l00037"></a><span class="lineno">   37</span>&#160;{</div><div class="line"><a name="l00038"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1_electro_physiology_reaction.html">   38</a></span>&#160;    <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1_electro_physiology_reaction.html">ElectroPhysiologyReaction</a> : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_base_reaction_model.html">BaseReactionModel</a></div><div class="line"><a name="l00039"></a><span class="lineno">   39</span>&#160;    {</div><div class="line"><a name="l00040"></a><span class="lineno">   40</span>&#160;    <span class="keyword">protected</span>:</div><div class="line"><a name="l00041"></a><span class="lineno">   41</span>&#160;        Real k_a_;</div><div class="line"><a name="l00042"></a><span class="lineno">   42</span>&#160;        <span class="keywordtype">size_t</span> voltage_;</div><div class="line"><a name="l00043"></a><span class="lineno">   43</span>&#160;        <span class="keywordtype">size_t</span> gate_variable_;</div><div class="line"><a name="l00044"></a><span class="lineno">   44</span>&#160;        <span class="keywordtype">size_t</span> active_contraction_stress_;</div><div class="line"><a name="l00045"></a><span class="lineno">   45</span>&#160;</div><div class="line"><a name="l00046"></a><span class="lineno">   46</span>&#160;        <span class="keyword">virtual</span> Real getProductionRateIonicCurrent(StdVec&lt;<a class="code" href="class_std_large_vec_3_01_real_01_4.html">StdLargeVec&lt;Real&gt;</a>&gt; &amp;species, <span class="keywordtype">size_t</span> particle_i) = 0;</div><div class="line"><a name="l00047"></a><span class="lineno">   47</span>&#160;        <span class="keyword">virtual</span> Real getLossRateIonicCurrent(StdVec&lt;<a class="code" href="class_std_large_vec_3_01_real_01_4.html">StdLargeVec&lt;Real&gt;</a>&gt; &amp;species, <span class="keywordtype">size_t</span> particle_i) = 0;</div><div class="line"><a name="l00048"></a><span class="lineno">   48</span>&#160;        <span class="keyword">virtual</span> Real getProductionRateGateVariable(StdVec&lt;<a class="code" href="class_std_large_vec_3_01_real_01_4.html">StdLargeVec&lt;Real&gt;</a>&gt; &amp;species, <span class="keywordtype">size_t</span> particle_i) = 0;</div><div class="line"><a name="l00049"></a><span class="lineno">   49</span>&#160;        <span class="keyword">virtual</span> Real getLossRateGateVariable(StdVec&lt;<a class="code" href="class_std_large_vec_3_01_real_01_4.html">StdLargeVec&lt;Real&gt;</a>&gt; &amp;species, <span class="keywordtype">size_t</span> particle_i) = 0;</div><div class="line"><a name="l00050"></a><span class="lineno">   50</span>&#160;        <span class="keyword">virtual</span> Real getProductionActiveContractionStress(StdVec&lt;<a class="code" href="class_std_large_vec_3_01_real_01_4.html">StdLargeVec&lt;Real&gt;</a>&gt; &amp;species, <span class="keywordtype">size_t</span> particle_i);</div><div class="line"><a name="l00051"></a><span class="lineno">   51</span>&#160;        <span class="keyword">virtual</span> Real getLossRateActiveContractionStress(StdVec&lt;<a class="code" href="class_std_large_vec_3_01_real_01_4.html">StdLargeVec&lt;Real&gt;</a>&gt; &amp;species, <span class="keywordtype">size_t</span> particle_i);</div><div class="line"><a name="l00052"></a><span class="lineno">   52</span>&#160;</div><div class="line"><a name="l00053"></a><span class="lineno">   53</span>&#160;    <span class="keyword">public</span>:</div><div class="line"><a name="l00054"></a><span class="lineno">   54</span>&#160;        <span class="keyword">explicit</span> <a class="code" href="class_s_p_h_1_1_electro_physiology_reaction.html">ElectroPhysiologyReaction</a>(Real k_a)</div><div class="line"><a name="l00055"></a><span class="lineno">   55</span>&#160;            : <a class="code" href="class_s_p_h_1_1_base_reaction_model.html">BaseReactionModel</a>({<span class="stringliteral">&quot;Voltage&quot;</span>, <span class="stringliteral">&quot;GateVariable&quot;</span>, <span class="stringliteral">&quot;ActiveContractionStress&quot;</span>}),</div><div class="line"><a name="l00056"></a><span class="lineno">   56</span>&#160;              k_a_(k_a), voltage_(species_indexes_map_[<span class="stringliteral">&quot;Voltage&quot;</span>]),</div><div class="line"><a name="l00057"></a><span class="lineno">   57</span>&#160;              gate_variable_(species_indexes_map_[<span class="stringliteral">&quot;GateVariable&quot;</span>]),</div><div class="line"><a name="l00058"></a><span class="lineno">   58</span>&#160;              active_contraction_stress_(species_indexes_map_[<span class="stringliteral">&quot;ActiveContractionStress&quot;</span>])</div><div class="line"><a name="l00059"></a><span class="lineno">   59</span>&#160;        {</div><div class="line"><a name="l00060"></a><span class="lineno">   60</span>&#160;            reaction_model_ = <span class="stringliteral">&quot;ElectroPhysiologyReaction&quot;</span>;</div><div class="line"><a name="l00061"></a><span class="lineno">   61</span>&#160;            initializeElectroPhysiologyReaction();</div><div class="line"><a name="l00062"></a><span class="lineno">   62</span>&#160;        };</div><div class="line"><a name="l00063"></a><span class="lineno">   63</span>&#160;        <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1_electro_physiology_reaction.html">ElectroPhysiologyReaction</a>(){};</div><div class="line"><a name="l00064"></a><span class="lineno">   64</span>&#160;</div><div class="line"><a name="l00065"></a><span class="lineno">   65</span>&#160;        <span class="keywordtype">void</span> initializeElectroPhysiologyReaction();</div><div class="line"><a name="l00066"></a><span class="lineno">   66</span>&#160;    };</div><div class="line"><a name="l00067"></a><span class="lineno">   67</span>&#160;</div><div class="line"><a name="l00074"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1_aliev_panfilow_model.html">   74</a></span>&#160;    <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1_aliev_panfilow_model.html">AlievPanfilowModel</a> : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_electro_physiology_reaction.html">ElectroPhysiologyReaction</a></div><div class="line"><a name="l00075"></a><span class="lineno">   75</span>&#160;    {</div><div class="line"><a name="l00076"></a><span class="lineno">   76</span>&#160;    <span class="keyword">protected</span>:</div><div class="line"><a name="l00078"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1_aliev_panfilow_model.html#ac926a3fcc24e3f7b65e2d87fa59662b4">   78</a></span>&#160;        Real <a class="code" href="class_s_p_h_1_1_aliev_panfilow_model.html#ac926a3fcc24e3f7b65e2d87fa59662b4">k_</a>, a_, b_, mu_1_, mu_2_, epsilon_, c_m_;</div><div class="line"><a name="l00079"></a><span class="lineno">   79</span>&#160;</div><div class="line"><a name="l00080"></a><span class="lineno">   80</span>&#160;        <span class="keyword">virtual</span> Real getProductionRateIonicCurrent(StdVec&lt;<a class="code" href="class_std_large_vec_3_01_real_01_4.html">StdLargeVec&lt;Real&gt;</a>&gt; &amp;species, <span class="keywordtype">size_t</span> particle_i) <span class="keyword">override</span>;</div><div class="line"><a name="l00081"></a><span class="lineno">   81</span>&#160;        <span class="keyword">virtual</span> Real getLossRateIonicCurrent(StdVec&lt;<a class="code" href="class_std_large_vec_3_01_real_01_4.html">StdLargeVec&lt;Real&gt;</a>&gt; &amp;species, <span class="keywordtype">size_t</span> particle_i) <span class="keyword">override</span>;</div><div class="line"><a name="l00082"></a><span class="lineno">   82</span>&#160;        <span class="keyword">virtual</span> Real getProductionRateGateVariable(StdVec&lt;<a class="code" href="class_std_large_vec_3_01_real_01_4.html">StdLargeVec&lt;Real&gt;</a>&gt; &amp;species, <span class="keywordtype">size_t</span> particle_i) <span class="keyword">override</span>;</div><div class="line"><a name="l00083"></a><span class="lineno">   83</span>&#160;        <span class="keyword">virtual</span> Real getLossRateGateVariable(StdVec&lt;<a class="code" href="class_std_large_vec_3_01_real_01_4.html">StdLargeVec&lt;Real&gt;</a>&gt; &amp;species, <span class="keywordtype">size_t</span> particle_i) <span class="keyword">override</span>;</div><div class="line"><a name="l00084"></a><span class="lineno">   84</span>&#160;</div><div class="line"><a name="l00085"></a><span class="lineno">   85</span>&#160;    <span class="keyword">public</span>:</div><div class="line"><a name="l00086"></a><span class="lineno">   86</span>&#160;        <span class="keyword">explicit</span> <a class="code" href="class_s_p_h_1_1_aliev_panfilow_model.html">AlievPanfilowModel</a>(Real k_a, Real c_m, Real k, Real a, Real b, Real mu_1, Real mu_2, Real epsilon)</div><div class="line"><a name="l00087"></a><span class="lineno">   87</span>&#160;            : <a class="code" href="class_s_p_h_1_1_electro_physiology_reaction.html">ElectroPhysiologyReaction</a>(k_a), <a class="code" href="class_s_p_h_1_1_aliev_panfilow_model.html#ac926a3fcc24e3f7b65e2d87fa59662b4">k_</a>(k), a_(a), b_(b), mu_1_(mu_1), mu_2_(mu_2),</div><div class="line"><a name="l00088"></a><span class="lineno">   88</span>&#160;              epsilon_(epsilon), c_m_(c_m)</div><div class="line"><a name="l00089"></a><span class="lineno">   89</span>&#160;        {</div><div class="line"><a name="l00090"></a><span class="lineno">   90</span>&#160;            reaction_model_ = <span class="stringliteral">&quot;AlievPanfilowModel&quot;</span>;</div><div class="line"><a name="l00091"></a><span class="lineno">   91</span>&#160;        };</div><div class="line"><a name="l00092"></a><span class="lineno">   92</span>&#160;        <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1_aliev_panfilow_model.html">AlievPanfilowModel</a>(){};</div><div class="line"><a name="l00093"></a><span class="lineno">   93</span>&#160;    };</div><div class="line"><a name="l00094"></a><span class="lineno">   94</span>&#160;</div><div class="line"><a name="l00099"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1_mono_field_electro_physiology.html">   99</a></span>&#160;    <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1_mono_field_electro_physiology.html">MonoFieldElectroPhysiology</a> : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_diffusion_reaction.html">DiffusionReaction</a>&lt;Solid&gt;</div><div class="line"><a name="l00100"></a><span class="lineno">  100</span>&#160;    {</div><div class="line"><a name="l00101"></a><span class="lineno">  101</span>&#160;    <span class="keyword">public</span>:</div><div class="line"><a name="l00102"></a><span class="lineno">  102</span>&#160;        <span class="keyword">explicit</span> <a class="code" href="class_s_p_h_1_1_mono_field_electro_physiology.html">MonoFieldElectroPhysiology</a>(<a class="code" href="class_s_p_h_1_1_electro_physiology_reaction.html">ElectroPhysiologyReaction</a> &amp;electro_physiology_reaction,</div><div class="line"><a name="l00103"></a><span class="lineno">  103</span>&#160;                                            Real diff_cf, Real bias_diff_cf, Vecd bias_direction);</div><div class="line"><a name="l00104"></a><span class="lineno">  104</span>&#160;        <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1_mono_field_electro_physiology.html">MonoFieldElectroPhysiology</a>(){};</div><div class="line"><a name="l00105"></a><span class="lineno">  105</span>&#160;    };</div><div class="line"><a name="l00106"></a><span class="lineno">  106</span>&#160;</div><div class="line"><a name="l00111"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1_local_mono_field_electro_physiology.html">  111</a></span>&#160;    <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1_local_mono_field_electro_physiology.html">LocalMonoFieldElectroPhysiology</a> : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_diffusion_reaction.html">DiffusionReaction</a>&lt;Solid&gt;</div><div class="line"><a name="l00112"></a><span class="lineno">  112</span>&#160;    {</div><div class="line"><a name="l00113"></a><span class="lineno">  113</span>&#160;    <span class="keyword">public</span>:</div><div class="line"><a name="l00114"></a><span class="lineno">  114</span>&#160;        <span class="keyword">explicit</span> <a class="code" href="class_s_p_h_1_1_local_mono_field_electro_physiology.html">LocalMonoFieldElectroPhysiology</a>(<a class="code" href="class_s_p_h_1_1_electro_physiology_reaction.html">ElectroPhysiologyReaction</a> &amp;electro_physiology_reaction,</div><div class="line"><a name="l00115"></a><span class="lineno">  115</span>&#160;                                                 Real diff_cf, Real bias_diff_cf, Vecd bias_direction);</div><div class="line"><a name="l00116"></a><span class="lineno">  116</span>&#160;        <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1_local_mono_field_electro_physiology.html">LocalMonoFieldElectroPhysiology</a>(){};</div><div class="line"><a name="l00117"></a><span class="lineno">  117</span>&#160;</div><div class="line"><a name="l00118"></a><span class="lineno">  118</span>&#160;        <span class="keyword">virtual</span> <span class="keywordtype">void</span> readFromXmlForLocalParameters(<span class="keyword">const</span> std::string &amp;filefullpath) <span class="keyword">override</span>;</div><div class="line"><a name="l00119"></a><span class="lineno">  119</span>&#160;    };</div><div class="line"><a name="l00120"></a><span class="lineno">  120</span>&#160;</div><div class="line"><a name="l00125"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1_electro_physiology_particles.html">  125</a></span>&#160;    <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1_electro_physiology_particles.html">ElectroPhysiologyParticles</a></div><div class="line"><a name="l00126"></a><span class="lineno">  126</span>&#160;        : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_diffusion_reaction_particles.html">DiffusionReactionParticles</a>&lt;SolidParticles&gt;</div><div class="line"><a name="l00127"></a><span class="lineno">  127</span>&#160;    {</div><div class="line"><a name="l00128"></a><span class="lineno">  128</span>&#160;    <span class="keyword">public</span>:</div><div class="line"><a name="l00129"></a><span class="lineno">  129</span>&#160;        <a class="code" href="class_s_p_h_1_1_electro_physiology_particles.html">ElectroPhysiologyParticles</a>(<a class="code" href="class_s_p_h_1_1_s_p_h_body.html">SPHBody</a> &amp;sph_body, <a class="code" href="class_s_p_h_1_1_diffusion_reaction.html">DiffusionReaction&lt;Solid&gt;</a> *diffusion_reaction_material);</div><div class="line"><a name="l00130"></a><span class="lineno">  130</span>&#160;        <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1_electro_physiology_particles.html">ElectroPhysiologyParticles</a>(){};</div><div class="line"><a name="l00131"></a><span class="lineno">  131</span>&#160;        <span class="keyword">virtual</span> <a class="code" href="class_s_p_h_1_1_electro_physiology_particles.html">ElectroPhysiologyParticles</a> *ThisObjectPtr()<span class="keyword"> override </span>{ <span class="keywordflow">return</span> <span class="keyword">this</span>; };</div><div class="line"><a name="l00132"></a><span class="lineno">  132</span>&#160;    };</div><div class="line"><a name="l00137"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1_electro_physiology_reduced_particles.html">  137</a></span>&#160;    <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1_electro_physiology_reduced_particles.html">ElectroPhysiologyReducedParticles</a></div><div class="line"><a name="l00138"></a><span class="lineno">  138</span>&#160;        : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_diffusion_reaction_particles.html">DiffusionReactionParticles</a>&lt;SolidParticles&gt;</div><div class="line"><a name="l00139"></a><span class="lineno">  139</span>&#160;    {</div><div class="line"><a name="l00140"></a><span class="lineno">  140</span>&#160;    <span class="keyword">public</span>:</div><div class="line"><a name="l00142"></a><span class="lineno">  142</span>&#160;        <a class="code" href="class_s_p_h_1_1_electro_physiology_reduced_particles.html#a468183a10e97b7e962f200d4e602e2c4">ElectroPhysiologyReducedParticles</a>(<a class="code" href="class_s_p_h_1_1_s_p_h_body.html">SPHBody</a> &amp;sph_body, <a class="code" href="class_s_p_h_1_1_diffusion_reaction.html">DiffusionReaction&lt;Solid&gt;</a> *diffusion_reaction_material);</div><div class="line"><a name="l00144"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1_electro_physiology_reduced_particles.html#aa18c8bb2137d83b06f9ac12dc55e505b">  144</a></span>&#160;        <span class="keyword">virtual</span> <a class="code" href="class_s_p_h_1_1_electro_physiology_reduced_particles.html#aa18c8bb2137d83b06f9ac12dc55e505b">~ElectroPhysiologyReducedParticles</a>(){};</div><div class="line"><a name="l00145"></a><span class="lineno">  145</span>&#160;        <span class="keyword">virtual</span> <a class="code" href="class_s_p_h_1_1_electro_physiology_reduced_particles.html">ElectroPhysiologyReducedParticles</a> *ThisObjectPtr()<span class="keyword"> override </span>{ <span class="keywordflow">return</span> <span class="keyword">this</span>; };</div><div class="line"><a name="l00146"></a><span class="lineno">  146</span>&#160;</div><div class="line"><a name="l00147"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1_electro_physiology_reduced_particles.html#a6eefabcbcce04b40d7a182dc00edea80">  147</a></span>&#160;        <span class="keyword">virtual</span> Vecd <a class="code" href="class_s_p_h_1_1_electro_physiology_reduced_particles.html#a6eefabcbcce04b40d7a182dc00edea80">getKernelGradient</a>(<span class="keywordtype">size_t</span> particle_index_i, <span class="keywordtype">size_t</span> particle_index_j, Real dW_ij, Vecd &amp;e_ij)<span class="keyword"> override</span></div><div class="line"><a name="l00148"></a><span class="lineno">  148</span>&#160;<span class="keyword">        </span>{</div><div class="line"><a name="l00149"></a><span class="lineno">  149</span>&#160;            <span class="keywordflow">return</span> dW_ij * e_ij;</div><div class="line"><a name="l00150"></a><span class="lineno">  150</span>&#160;        };</div><div class="line"><a name="l00151"></a><span class="lineno">  151</span>&#160;    };</div><div class="line"><a name="l00152"></a><span class="lineno">  152</span>&#160;</div><div class="line"><a name="l00153"></a><span class="lineno">  153</span>&#160;    <span class="keyword">namespace </span>electro_physiology</div><div class="line"><a name="l00154"></a><span class="lineno">  154</span>&#160;    {</div><div class="line"><a name="l00155"></a><span class="lineno">  155</span>&#160;        <span class="keyword">typedef</span> DiffusionReactionSimpleData&lt;RealBody, SolidParticles, Solid&gt; ElectroPhysiologyDataDelegateSimple;</div><div class="line"><a name="l00156"></a><span class="lineno">  156</span>&#160;        <span class="keyword">typedef</span> DiffusionReactionInnerData&lt;RealBody, SolidParticles, Solid&gt; ElectroPhysiologyDataDelegateInner;</div><div class="line"><a name="l00162"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_initial_condition.html">  162</a></span>&#160;        <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_initial_condition.html">ElectroPhysiologyInitialCondition</a> : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_particle_dynamics_simple.html">ParticleDynamicsSimple</a>,</div><div class="line"><a name="l00163"></a><span class="lineno">  163</span>&#160;                                                  <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_data_delegate_simple.html">ElectroPhysiologyDataDelegateSimple</a></div><div class="line"><a name="l00164"></a><span class="lineno">  164</span>&#160;        {</div><div class="line"><a name="l00165"></a><span class="lineno">  165</span>&#160;        <span class="keyword">public</span>:</div><div class="line"><a name="l00166"></a><span class="lineno">  166</span>&#160;            <span class="keyword">explicit</span> <a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_initial_condition.html">ElectroPhysiologyInitialCondition</a>(<a class="code" href="class_s_p_h_1_1_real_body.html">RealBody</a> &amp;real_body);</div><div class="line"><a name="l00167"></a><span class="lineno">  167</span>&#160;            <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_initial_condition.html">ElectroPhysiologyInitialCondition</a>(){};</div><div class="line"><a name="l00168"></a><span class="lineno">  168</span>&#160;</div><div class="line"><a name="l00169"></a><span class="lineno">  169</span>&#160;        <span class="keyword">protected</span>:</div><div class="line"><a name="l00170"></a><span class="lineno">  170</span>&#160;            <a class="code" href="class_std_large_vec_3_01_vecd_01_4.html">StdLargeVec&lt;Vecd&gt;</a> &amp;pos_;</div><div class="line"><a name="l00171"></a><span class="lineno">  171</span>&#160;            StdVec&lt;StdLargeVec&lt;Real&gt;&gt; &amp;species_n_;</div><div class="line"><a name="l00172"></a><span class="lineno">  172</span>&#160;        };</div><div class="line"><a name="l00177"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1electro__physiology_1_1_get_electro_physiology_time_step_size.html">  177</a></span>&#160;        <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1electro__physiology_1_1_get_electro_physiology_time_step_size.html">GetElectroPhysiologyTimeStepSize</a></div><div class="line"><a name="l00178"></a><span class="lineno">  178</span>&#160;            : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_get_diffusion_time_step_size.html">GetDiffusionTimeStepSize</a>&lt;RealBody, SolidParticles, Solid&gt;</div><div class="line"><a name="l00179"></a><span class="lineno">  179</span>&#160;        {</div><div class="line"><a name="l00180"></a><span class="lineno">  180</span>&#160;        <span class="keyword">public</span>:</div><div class="line"><a name="l00181"></a><span class="lineno">  181</span>&#160;            <span class="keyword">explicit</span> <a class="code" href="class_s_p_h_1_1electro__physiology_1_1_get_electro_physiology_time_step_size.html">GetElectroPhysiologyTimeStepSize</a>(<a class="code" href="class_s_p_h_1_1_real_body.html">RealBody</a> &amp;real_body)</div><div class="line"><a name="l00182"></a><span class="lineno">  182</span>&#160;                : <a class="code" href="class_s_p_h_1_1_get_diffusion_time_step_size.html">GetDiffusionTimeStepSize&lt;RealBody, SolidParticles, Solid&gt;</a>(real_body){};</div><div class="line"><a name="l00183"></a><span class="lineno">  183</span>&#160;            <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1electro__physiology_1_1_get_electro_physiology_time_step_size.html">GetElectroPhysiologyTimeStepSize</a>(){};</div><div class="line"><a name="l00184"></a><span class="lineno">  184</span>&#160;        };</div><div class="line"><a name="l00189"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_inner.html">  189</a></span>&#160;        <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_inner.html">ElectroPhysiologyDiffusionRelaxationInner</a></div><div class="line"><a name="l00190"></a><span class="lineno">  190</span>&#160;            : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_relaxation_of_all_diffusion_species_r_k2.html">RelaxationOfAllDiffusionSpeciesRK2</a>&lt;</div><div class="line"><a name="l00191"></a><span class="lineno">  191</span>&#160;                  RelaxationOfAllDiffusionSpeciesInner&lt;RealBody, SolidParticles, Solid&gt;&gt;</div><div class="line"><a name="l00192"></a><span class="lineno">  192</span>&#160;        {</div><div class="line"><a name="l00193"></a><span class="lineno">  193</span>&#160;        <span class="keyword">public</span>:</div><div class="line"><a name="l00194"></a><span class="lineno">  194</span>&#160;            <span class="keyword">explicit</span> <a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_inner.html">ElectroPhysiologyDiffusionRelaxationInner</a>(<a class="code" href="class_s_p_h_1_1_base_body_relation_inner.html">BaseBodyRelationInner</a> &amp;inner_relation)</div><div class="line"><a name="l00195"></a><span class="lineno">  195</span>&#160;                : <a class="code" href="class_s_p_h_1_1_relaxation_of_all_diffusion_species_r_k2.html">RelaxationOfAllDiffusionSpeciesRK2</a>(inner_relation){};</div><div class="line"><a name="l00196"></a><span class="lineno">  196</span>&#160;            <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_inner.html">ElectroPhysiologyDiffusionRelaxationInner</a>(){};</div><div class="line"><a name="l00197"></a><span class="lineno">  197</span>&#160;        };</div><div class="line"><a name="l00202"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_complex.html">  202</a></span>&#160;        <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_complex.html">ElectroPhysiologyDiffusionRelaxationComplex</a></div><div class="line"><a name="l00203"></a><span class="lineno">  203</span>&#160;            : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_relaxation_of_all_diffusion_species_r_k2.html">RelaxationOfAllDiffusionSpeciesRK2</a>&lt;</div><div class="line"><a name="l00204"></a><span class="lineno">  204</span>&#160;                  RelaxationOfAllDiffusionSpeciesComplex&lt;RealBody, SolidParticles, Solid, RealBody, SolidParticles, Solid&gt;&gt;</div><div class="line"><a name="l00205"></a><span class="lineno">  205</span>&#160;        {</div><div class="line"><a name="l00206"></a><span class="lineno">  206</span>&#160;        <span class="keyword">public</span>:</div><div class="line"><a name="l00207"></a><span class="lineno">  207</span>&#160;            <span class="keyword">explicit</span> <a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_complex.html">ElectroPhysiologyDiffusionRelaxationComplex</a>(<a class="code" href="class_s_p_h_1_1_complex_body_relation.html">ComplexBodyRelation</a> &amp;complex_relation)</div><div class="line"><a name="l00208"></a><span class="lineno">  208</span>&#160;                : <a class="code" href="class_s_p_h_1_1_relaxation_of_all_diffusion_species_r_k2.html">RelaxationOfAllDiffusionSpeciesRK2</a>(complex_relation){};</div><div class="line"><a name="l00209"></a><span class="lineno">  209</span>&#160;            <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_complex.html">ElectroPhysiologyDiffusionRelaxationComplex</a>(){};</div><div class="line"><a name="l00210"></a><span class="lineno">  210</span>&#160;        };</div><div class="line"><a name="l00216"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_forward.html">  216</a></span>&#160;        <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_forward.html">ElectroPhysiologyReactionRelaxationForward</a></div><div class="line"><a name="l00217"></a><span class="lineno">  217</span>&#160;            : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_relaxation_of_all_reactions_forward.html">RelaxationOfAllReactionsForward</a>&lt;RealBody, SolidParticles, Solid&gt;</div><div class="line"><a name="l00218"></a><span class="lineno">  218</span>&#160;        {</div><div class="line"><a name="l00219"></a><span class="lineno">  219</span>&#160;        <span class="keyword">public</span>:</div><div class="line"><a name="l00220"></a><span class="lineno">  220</span>&#160;            <span class="keyword">explicit</span> <a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_forward.html">ElectroPhysiologyReactionRelaxationForward</a>(<a class="code" href="class_s_p_h_1_1_real_body.html">RealBody</a> &amp;real_body)</div><div class="line"><a name="l00221"></a><span class="lineno">  221</span>&#160;                : <a class="code" href="class_s_p_h_1_1_relaxation_of_all_reactions_forward.html">RelaxationOfAllReactionsForward&lt;RealBody, SolidParticles, Solid&gt;</a>(real_body){};</div><div class="line"><a name="l00222"></a><span class="lineno">  222</span>&#160;            <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_forward.html">ElectroPhysiologyReactionRelaxationForward</a>(){};</div><div class="line"><a name="l00223"></a><span class="lineno">  223</span>&#160;        };</div><div class="line"><a name="l00229"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_backward.html">  229</a></span>&#160;        <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_backward.html">ElectroPhysiologyReactionRelaxationBackward</a></div><div class="line"><a name="l00230"></a><span class="lineno">  230</span>&#160;            : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_relaxation_of_all_reactions_backward.html">RelaxationOfAllReactionsBackward</a>&lt;RealBody, SolidParticles, Solid&gt;</div><div class="line"><a name="l00231"></a><span class="lineno">  231</span>&#160;        {</div><div class="line"><a name="l00232"></a><span class="lineno">  232</span>&#160;        <span class="keyword">public</span>:</div><div class="line"><a name="l00233"></a><span class="lineno">  233</span>&#160;            <span class="keyword">explicit</span> <a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_backward.html">ElectroPhysiologyReactionRelaxationBackward</a>(<a class="code" href="class_s_p_h_1_1_real_body.html">RealBody</a> &amp;real_body)</div><div class="line"><a name="l00234"></a><span class="lineno">  234</span>&#160;                : <a class="code" href="class_s_p_h_1_1_relaxation_of_all_reactions_backward.html">RelaxationOfAllReactionsBackward&lt;RealBody, SolidParticles, Solid&gt;</a>(real_body){};</div><div class="line"><a name="l00235"></a><span class="lineno">  235</span>&#160;            <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_backward.html">ElectroPhysiologyReactionRelaxationBackward</a>(){};</div><div class="line"><a name="l00236"></a><span class="lineno">  236</span>&#160;        };</div><div class="line"><a name="l00242"></a><span class="lineno"><a class="line" href="class_s_p_h_1_1electro__physiology_1_1_apply_stimulus_currents.html">  242</a></span>&#160;        <span class="keyword">class </span><a class="code" href="class_s_p_h_1_1electro__physiology_1_1_apply_stimulus_currents.html">ApplyStimulusCurrents</a> : <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_particle_dynamics_simple.html">ParticleDynamicsSimple</a>,</div><div class="line"><a name="l00243"></a><span class="lineno">  243</span>&#160;                                      <span class="keyword">public</span> <a class="code" href="class_s_p_h_1_1_data_delegate_simple.html">ElectroPhysiologyDataDelegateSimple</a></div><div class="line"><a name="l00244"></a><span class="lineno">  244</span>&#160;        {</div><div class="line"><a name="l00245"></a><span class="lineno">  245</span>&#160;        <span class="keyword">public</span>:</div><div class="line"><a name="l00246"></a><span class="lineno">  246</span>&#160;            <span class="keyword">explicit</span> <a class="code" href="class_s_p_h_1_1electro__physiology_1_1_apply_stimulus_currents.html">ApplyStimulusCurrents</a>(<a class="code" href="class_s_p_h_1_1_real_body.html">RealBody</a> &amp;real_body)</div><div class="line"><a name="l00247"></a><span class="lineno">  247</span>&#160;                : <a class="code" href="class_s_p_h_1_1_particle_dynamics_simple.html">ParticleDynamicsSimple</a>(real_body),</div><div class="line"><a name="l00248"></a><span class="lineno">  248</span>&#160;                  <a class="code" href="class_s_p_h_1_1_data_delegate_simple.html">ElectroPhysiologyDataDelegateSimple</a>(real_body) {}</div><div class="line"><a name="l00249"></a><span class="lineno">  249</span>&#160;            <span class="keyword">virtual</span> ~<a class="code" href="class_s_p_h_1_1electro__physiology_1_1_apply_stimulus_currents.html">ApplyStimulusCurrents</a>(){};</div><div class="line"><a name="l00250"></a><span class="lineno">  250</span>&#160;        };</div><div class="line"><a name="l00251"></a><span class="lineno">  251</span>&#160;    }</div><div class="line"><a name="l00252"></a><span class="lineno">  252</span>&#160;}</div><div class="line"><a name="l00253"></a><span class="lineno">  253</span>&#160;<span class="preprocessor">#endif // ELECTRO_PHYSIOLOGY_H</span></div><div class="ttc" id="class_std_large_vec_3_01_real_01_4_html"><div class="ttname"><a href="class_std_large_vec_3_01_real_01_4.html">StdLargeVec&lt; Real &gt;</a></div></div>
<div class="ttc" id="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_initial_condition_html"><div class="ttname"><a href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_initial_condition.html">SPH::electro_physiology::ElectroPhysiologyInitialCondition</a></div><div class="ttdoc">set initial condition for a muscle body This is a abstract class to be override for case specific ini...</div><div class="ttdef"><b>Definition:</b> electro_physiology.h:162</div></div>
<div class="ttc" id="class_s_p_h_1_1_particle_dynamics_simple_html"><div class="ttname"><a href="class_s_p_h_1_1_particle_dynamics_simple.html">SPH::ParticleDynamicsSimple</a></div><div class="ttdoc">Simple particle dynamics without considering particle interaction. </div><div class="ttdef"><b>Definition:</b> particle_dynamics_algorithms.h:48</div></div>
<div class="ttc" id="class_s_p_h_1_1_diffusion_reaction_html"><div class="ttname"><a href="class_s_p_h_1_1_diffusion_reaction.html">SPH::DiffusionReaction</a></div><div class="ttdoc">Complex material for diffusion or/and reactions. </div><div class="ttdef"><b>Definition:</b> diffusion_reaction.h:195</div></div>
<div class="ttc" id="class_s_p_h_1_1_aliev_panfilow_model_html"><div class="ttname"><a href="class_s_p_h_1_1_aliev_panfilow_model.html">SPH::AlievPanfilowModel</a></div><div class="ttdoc">The simplest Electrophysiology Reaction model, which reduces the complex of array of ion currents to ...</div><div class="ttdef"><b>Definition:</b> electro_physiology.h:74</div></div>
<div class="ttc" id="class_s_p_h_1_1_relaxation_of_all_diffusion_species_r_k2_html"><div class="ttname"><a href="class_s_p_h_1_1_relaxation_of_all_diffusion_species_r_k2.html">SPH::RelaxationOfAllDiffusionSpeciesRK2</a></div><div class="ttdoc">Compute the diffusion relaxation process of all species with second order Runge-Kutta time stepping...</div><div class="ttdef"><b>Definition:</b> particle_dynamics_diffusion_reaction.h:204</div></div>
<div class="ttc" id="class_s_p_h_1_1_mono_field_electro_physiology_html"><div class="ttname"><a href="class_s_p_h_1_1_mono_field_electro_physiology.html">SPH::MonoFieldElectroPhysiology</a></div><div class="ttdoc">material class for electro_physiology. </div><div class="ttdef"><b>Definition:</b> electro_physiology.h:99</div></div>
<div class="ttc" id="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_backward_html"><div class="ttname"><a href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_backward.html">SPH::electro_physiology::ElectroPhysiologyReactionRelaxationBackward</a></div><div class="ttdef"><b>Definition:</b> electro_physiology.h:229</div></div>
<div class="ttc" id="class_s_p_h_1_1_relaxation_of_all_reactions_forward_html"><div class="ttname"><a href="class_s_p_h_1_1_relaxation_of_all_reactions_forward.html">SPH::RelaxationOfAllReactionsForward</a></div><div class="ttdoc">Compute the reaction process of all species by forward splitting. </div><div class="ttdef"><b>Definition:</b> particle_dynamics_diffusion_reaction.h:239</div></div>
<div class="ttc" id="class_s_p_h_1_1_local_mono_field_electro_physiology_html"><div class="ttname"><a href="class_s_p_h_1_1_local_mono_field_electro_physiology.html">SPH::LocalMonoFieldElectroPhysiology</a></div><div class="ttdoc">material class for electro_physiology with locally oriented fibers. </div><div class="ttdef"><b>Definition:</b> electro_physiology.h:111</div></div>
<div class="ttc" id="class_s_p_h_1_1_electro_physiology_particles_html"><div class="ttname"><a href="class_s_p_h_1_1_electro_physiology_particles.html">SPH::ElectroPhysiologyParticles</a></div><div class="ttdoc">A group of particles with electrophysiology particle data. </div><div class="ttdef"><b>Definition:</b> electro_physiology.h:125</div></div>
<div class="ttc" id="class_s_p_h_1_1_electro_physiology_reaction_html"><div class="ttname"><a href="class_s_p_h_1_1_electro_physiology_reaction.html">SPH::ElectroPhysiologyReaction</a></div><div class="ttdef"><b>Definition:</b> electro_physiology.h:38</div></div>
<div class="ttc" id="class_std_large_vec_3_01_vecd_01_4_html"><div class="ttname"><a href="class_std_large_vec_3_01_vecd_01_4.html">StdLargeVec&lt; Vecd &gt;</a></div></div>
<div class="ttc" id="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_complex_html"><div class="ttname"><a href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_complex.html">SPH::electro_physiology::ElectroPhysiologyDiffusionRelaxationComplex</a></div><div class="ttdoc">Compute the diffusion relaxation process. </div><div class="ttdef"><b>Definition:</b> electro_physiology.h:202</div></div>
<div class="ttc" id="class_s_p_h_1_1_get_diffusion_time_step_size_html"><div class="ttname"><a href="class_s_p_h_1_1_get_diffusion_time_step_size.html">SPH::GetDiffusionTimeStepSize</a></div><div class="ttdoc">Computing the time step size based on diffusion coefficient and particle smoothing length...</div><div class="ttdef"><b>Definition:</b> particle_dynamics_diffusion_reaction.h:83</div></div>
<div class="ttc" id="class_s_p_h_1_1electro__physiology_1_1_get_electro_physiology_time_step_size_html"><div class="ttname"><a href="class_s_p_h_1_1electro__physiology_1_1_get_electro_physiology_time_step_size.html">SPH::electro_physiology::GetElectroPhysiologyTimeStepSize</a></div><div class="ttdoc">Computing the time step size from diffusion criteria. </div><div class="ttdef"><b>Definition:</b> electro_physiology.h:177</div></div>
<div class="ttc" id="class_s_p_h_1_1_electro_physiology_reduced_particles_html"><div class="ttname"><a href="class_s_p_h_1_1_electro_physiology_reduced_particles.html">SPH::ElectroPhysiologyReducedParticles</a></div><div class="ttdoc">A group of reduced particles with electrophysiology particle data. </div><div class="ttdef"><b>Definition:</b> electro_physiology.h:137</div></div>
<div class="ttc" id="class_s_p_h_1_1_electro_physiology_reduced_particles_html_aa18c8bb2137d83b06f9ac12dc55e505b"><div class="ttname"><a href="class_s_p_h_1_1_electro_physiology_reduced_particles.html#aa18c8bb2137d83b06f9ac12dc55e505b">SPH::ElectroPhysiologyReducedParticles::~ElectroPhysiologyReducedParticles</a></div><div class="ttdeci">virtual ~ElectroPhysiologyReducedParticles()</div><div class="ttdef"><b>Definition:</b> electro_physiology.h:144</div></div>
<div class="ttc" id="class_s_p_h_1_1_base_reaction_model_html"><div class="ttname"><a href="class_s_p_h_1_1_base_reaction_model.html">SPH::BaseReactionModel</a></div><div class="ttdoc">Base class for all reaction models. </div><div class="ttdef"><b>Definition:</b> diffusion_reaction.h:163</div></div>
<div class="ttc" id="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_forward_html"><div class="ttname"><a href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_reaction_relaxation_forward.html">SPH::electro_physiology::ElectroPhysiologyReactionRelaxationForward</a></div><div class="ttdoc">Solve the reaction ODE equation of trans-membrane potential using forward sweeping. </div><div class="ttdef"><b>Definition:</b> electro_physiology.h:216</div></div>
<div class="ttc" id="class_s_p_h_1_1_electro_physiology_reduced_particles_html_a468183a10e97b7e962f200d4e602e2c4"><div class="ttname"><a href="class_s_p_h_1_1_electro_physiology_reduced_particles.html#a468183a10e97b7e962f200d4e602e2c4">SPH::ElectroPhysiologyReducedParticles::ElectroPhysiologyReducedParticles</a></div><div class="ttdeci">ElectroPhysiologyReducedParticles(SPHBody &amp;sph_body, DiffusionReaction&lt; Solid &gt; *diffusion_reaction_material)</div><div class="ttdef"><b>Definition:</b> electro_physiology.cpp:99</div></div>
<div class="ttc" id="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_inner_html"><div class="ttname"><a href="class_s_p_h_1_1electro__physiology_1_1_electro_physiology_diffusion_relaxation_inner.html">SPH::electro_physiology::ElectroPhysiologyDiffusionRelaxationInner</a></div><div class="ttdoc">Compute the diffusion relaxation process. </div><div class="ttdef"><b>Definition:</b> electro_physiology.h:189</div></div>
<div class="ttc" id="class_s_p_h_1_1_relaxation_of_all_reactions_backward_html"><div class="ttname"><a href="class_s_p_h_1_1_relaxation_of_all_reactions_backward.html">SPH::RelaxationOfAllReactionsBackward</a></div><div class="ttdoc">Compute the reaction process of all species by backward splitting. </div><div class="ttdef"><b>Definition:</b> particle_dynamics_diffusion_reaction.h:260</div></div>
<div class="ttc" id="class_s_p_h_1_1_complex_body_relation_html"><div class="ttname"><a href="class_s_p_h_1_1_complex_body_relation.html">SPH::ComplexBodyRelation</a></div><div class="ttdoc">The relation combined an inner and a contact body relation. The interaction is in a inner-boundary-co...</div><div class="ttdef"><b>Definition:</b> complex_body_relation.h:42</div></div>
<div class="ttc" id="class_s_p_h_1_1_diffusion_reaction_particles_html"><div class="ttname"><a href="class_s_p_h_1_1_diffusion_reaction_particles.html">SPH::DiffusionReactionParticles</a></div><div class="ttdoc">A group of particles with diffusion or/and reactions particle data. </div><div class="ttdef"><b>Definition:</b> diffusion_reaction_particles.h:45</div></div>
<div class="ttc" id="class_s_p_h_1_1_s_p_h_body_html"><div class="ttname"><a href="class_s_p_h_1_1_s_p_h_body.html">SPH::SPHBody</a></div><div class="ttdoc">SPHBody is a base body with basic data and functions. Its derived class can be a real fluid body...</div><div class="ttdef"><b>Definition:</b> base_body.h:61</div></div>
<div class="ttc" id="class_s_p_h_1_1_electro_physiology_reduced_particles_html_a6eefabcbcce04b40d7a182dc00edea80"><div class="ttname"><a href="class_s_p_h_1_1_electro_physiology_reduced_particles.html#a6eefabcbcce04b40d7a182dc00edea80">SPH::ElectroPhysiologyReducedParticles::getKernelGradient</a></div><div class="ttdeci">virtual Vecd getKernelGradient(size_t particle_index_i, size_t particle_index_j, Real dW_ij, Vecd &amp;e_ij) override</div><div class="ttdef"><b>Definition:</b> electro_physiology.h:147</div></div>
<div class="ttc" id="solid__particles_8h_html"><div class="ttname"><a href="solid__particles_8h.html">solid_particles.h</a></div><div class="ttdoc">This is the derived class of base particles. </div></div>
<div class="ttc" id="class_s_p_h_1_1_base_body_relation_inner_html"><div class="ttname"><a href="class_s_p_h_1_1_base_body_relation_inner.html">SPH::BaseBodyRelationInner</a></div><div class="ttdoc">The abstract relation within a SPH body. </div><div class="ttdef"><b>Definition:</b> base_body_relation.h:117</div></div>
<div class="ttc" id="class_s_p_h_1_1electro__physiology_1_1_apply_stimulus_currents_html"><div class="ttname"><a href="class_s_p_h_1_1electro__physiology_1_1_apply_stimulus_currents.html">SPH::electro_physiology::ApplyStimulusCurrents</a></div><div class="ttdoc">Apply specific stimulus currents This is a abstract class to be override for case specific implementa...</div><div class="ttdef"><b>Definition:</b> electro_physiology.h:242</div></div>
<div class="ttc" id="class_s_p_h_1_1_data_delegate_simple_html"><div class="ttname"><a href="class_s_p_h_1_1_data_delegate_simple.html">SPH::DataDelegateSimple</a></div><div class="ttdoc">prepare data for simple particle dynamics. </div><div class="ttdef"><b>Definition:</b> base_particle_dynamics.h:185</div></div>
<div class="ttc" id="class_s_p_h_1_1_real_body_html"><div class="ttname"><a href="class_s_p_h_1_1_real_body.html">SPH::RealBody</a></div><div class="ttdoc">Derived body with inner particle configuration or inner interactions. After construction, the particle and material must be specified. </div><div class="ttdef"><b>Definition:</b> base_body.h:182</div></div>
<div class="ttc" id="particle__dynamics__diffusion__reaction_8h_html"><div class="ttname"><a href="particle__dynamics__diffusion__reaction_8h.html">particle_dynamics_diffusion_reaction.h</a></div><div class="ttdoc">This is the particle dynamics applicable for all type bodies TODO: there is an issue on applying corr...</div></div>
<div class="ttc" id="namespace_s_p_h_html"><div class="ttname"><a href="namespace_s_p_h.html">SPH</a></div><div class="ttdef"><b>Definition:</b> solid_body_supplementary.cpp:9</div></div>
<div class="ttc" id="class_s_p_h_1_1_aliev_panfilow_model_html_ac926a3fcc24e3f7b65e2d87fa59662b4"><div class="ttname"><a href="class_s_p_h_1_1_aliev_panfilow_model.html#ac926a3fcc24e3f7b65e2d87fa59662b4">SPH::AlievPanfilowModel::k_</a></div><div class="ttdeci">Real k_</div><div class="ttdef"><b>Definition:</b> electro_physiology.h:78</div></div>
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